We present a sub-50 pc-scale analysis of the gravitational lens system SDP.81 at redshift 3.042 using Atacama Large Millimetre/submillimetre Array (ALMA) science verification data. We model both the mass distribution of the gravitational lensing galaxy and the pixelated surface brightness distribution of the background source using a novel Bayesian technique that fits the data directly in visibility space. We find the 1 and 1.3 mm dust emission to be magnified by a factor of u_tot = 17.6+/-0.4, giving an intrinsic total star-formation rate of 315+/-60 M_sol/yr and a dust mass of 6.4+/-1.5*10^8 M_sol. The reconstructed dust emission is found to be non-uniform, but composed of multiple regions that are heated by both diffuse and strongly clumped star-formation. The highest surface brightness region is a ~1.9*0.7 kpc disk-like structure, whose small extent is consistent with a potential size-bias in gravitationally lensed starbursts. Although surrounded by extended star formation, with a density of 20-30+/-10 M_sol/yr/kpc^2, the disk contains three compact regions with densities that peak between 120-190+/-20 M_sol/yr/kpc^2. Such star-formation rate densities are below what is expected for Eddington-limited star-formation by a radiation pressure supported starburst. There is also a tentative variation in the spectral slope of the different star-forming regions, which is likely due to a change in the dust temperature and/or opacity across the source.
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